Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 326 of 425
Found at i:101293672 original size:27 final size:27
Alignment explanation
Indices: 101293639--101293718 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
101293629 TTTTACCCTA
* *
101293639 CAGGGGTATTTTAGTAATTTTTCAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
101293666 CATGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
101293693 TAGGGGTATTTTGGTAATTTTACAAA
1 CAGGGGTATTTTGGTAATTTTACAAA
101293719 TTGAGGGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:101293673 original size:54 final size:54
Alignment explanation
Indices: 101293614--101293740 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 54
101293604 TTACCCCACA
** *
101293614 AGGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAA-CC
1 AGGGTATTTCAGTAATTTTA-CAAACTAGGGGTATTTTAGTAATTTTACAAATCC
** * **
101293667 ATGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCC
*
101293722 AGGGTATTTCTGTAATTTT
1 AGGGTATTTCAGTAATTTT
101293741 GTAAATCGAG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
53 4 0.07
54 56 0.92
55 1 0.02
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCC
Found at i:101293726 original size:27 final size:28
Alignment explanation
Indices: 101293640--101293752 Score: 117
Period size: 27 Copynumber: 4.1 Consensus size: 28
101293630 TTTACCCTAC
* * *
101293640 AGGGGTATTTTAGTAATTTTTCAAA-CC
1 AGGGGTATTTTGGTAATTTTACAAATCG
* *
101293667 ATGGGTATTTTGGTAATTTTACAAA-CT
1 AGGGGTATTTTGGTAATTTTACAAATCG
*
101293694 AGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGGTATTTTGGTAATTTTACAAATCG
**
101293722 A-GGGTATTTCT-GTAATTTTGTAAATCG
1 AGGGGTATTT-TGGTAATTTTACAAATCG
101293749 AGGG
1 AGGG
101293753 TAAAATAGTA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
27 69 0.95
28 4 0.05
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (28 bp):
AGGGGTATTTTGGTAATTTTACAAATCG
Found at i:101293753 original size:27 final size:27
Alignment explanation
Indices: 101293705--101294072 Score: 405
Period size: 27 Copynumber: 13.6 Consensus size: 27
101293695 GGGGTATTTT
* * ***
101293705 GGTAATTTTACAAATTGAGGGTATTTC
1 GGTAATTTTATAAATCGAGGGTAAAAC
* * *
101293732 TGTAATTTTGTAAATCGAGGGTAAAAT
1 GGTAATTTTATAAATCGAGGGTAAAAC
* * * * * * *
101293759 AGTAATTCTGTAAATCAAGAGAAAAAT
1 GGTAATTTTATAAATCGAGGGTAAAAC
* * *
101293786 AGTAATTCTATAAATCGACGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAAC
* *
101293813 GATAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAAC
* * *
101293840 AGTAATTCTGTAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAAC
101293867 GGTAATTTTATAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAAC
* * * *
101293894 AGTAATTCTGTAAATCGAGGGTAAAAT
1 GGTAATTTTATAAATCGAGGGTAAAAC
*
101293921 GGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAAC
*
101293948 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAAC
*
101293975 GGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAAC
*
101294002 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAAC
* *
101294029 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 GGTAATTTTATAAATC-GAGGGTAAAAC
* *
101294056 GGTAATTCTGTAAATCG
1 GGTAATTTTATAAATCG
101294073 GGAGTACTTT
Statistics
Matches: 291, Mismatches: 48, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.00
27 289 0.99
28 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.29
Consensus pattern (27 bp):
GGTAATTTTATAAATCGAGGGTAAAAC
Found at i:101300151 original size:28 final size:28
Alignment explanation
Indices: 101300119--101300217 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
101300109 GCAATAAGCC
*
101300119 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
101300147 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
101300175 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
101300204 CGCACACTTAGTGC
1 CGCACACTTAGTGC
101300218 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:101301573 original size:28 final size:28
Alignment explanation
Indices: 101301533--101301639 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
101301523 TGTCACAAAT
*
101301533 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
101301561 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
101301589 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
101301617 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
101301640 CGAATGATTC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:101304340 original size:55 final size:55
Alignment explanation
Indices: 101304253--101304365 Score: 136
Period size: 55 Copynumber: 2.1 Consensus size: 55
101304243 CGAGCCTGCC
* * * * * *
101304253 AAAACAATACGGGCATGCGACTTGCCCGTGTGGAAGAACCATGGGCAAACTTGTT
1 AAAACAACACGGGCATGCGACATGCACATGTGGAACAACCATGGGCAAACCTGTT
* * * *
101304308 AAAACAACACGGGCATTCGACATGCACATGTGGAACACCCATGGTCGAACCTGTT
1 AAAACAACACGGGCATGCGACATGCACATGTGGAACAACCATGGGCAAACCTGTT
101304363 AAA
1 AAA
101304366 TTAAGACTGG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.19
Consensus pattern (55 bp):
AAAACAACACGGGCATGCGACATGCACATGTGGAACAACCATGGGCAAACCTGTT
Found at i:101304984 original size:120 final size:119
Alignment explanation
Indices: 101304768--101304987 Score: 275
Period size: 120 Copynumber: 1.8 Consensus size: 119
101304758 TTCATTGTTC
* ** *
101304768 TATCATTTAATTTGCATTCTTAGGTTAGTTAATACATTTTGTGTTAAATCAAGTTATTAGGAACA
1 TATCATTTAATTTGCATTCTTAAGTTAGTTAATACATTCCGTGTTAAATCAAG-TATTAGGAAAA
* *
101304833 CCTAATACCCATGACATTACTATGTTTATTCTCATGCTATTACCATGCCAATGTA
65 CCCAATACCCATGACATTACTATGTTCATTCTCATGCTATTACCATGCCAATGTA
**
101304888 TATCATTTAATTTGCATTAC-TAAGTTAGTTATCATACATTCCGTGTTAAATTGAG-ATTAGGAA
1 TATCATTTAATTTGCATT-CTTAAGTTAGTTA--ATACATTCCGTGTTAAATCAAGTATTAGGAA
* * *
101304951 AACCCCATACCCATTACATTTCTAT-TCTCATTCTCAT
63 AACCCAATACCCATGACATTACTATGT-TCATTCTCAT
101304988 TGTTATTGTG
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
119 1 0.01
120 65 0.76
121 1 0.01
122 18 0.21
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (119 bp):
TATCATTTAATTTGCATTCTTAAGTTAGTTAATACATTCCGTGTTAAATCAAGTATTAGGAAAAC
CCAATACCCATGACATTACTATGTTCATTCTCATGCTATTACCATGCCAATGTA
Found at i:101306345 original size:6 final size:6
Alignment explanation
Indices: 101306334--101306362 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
101306324 TTAAAACTAC
101306334 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
101306363 GCAAATTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:101311282 original size:40 final size:40
Alignment explanation
Indices: 101311215--101311290 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
101311205 TAGTGCCTCG
* ** *
101311215 TATAGCCAAAACTATTCCATTTTGCACACTCAGTGCTATT
1 TATAACCAAAACTATTCCAAATCGCACACTCAGTGCTATT
* *
101311255 TATAACCAAAACTATTTCAAATCGCACACTTAGTGC
1 TATAACCAAAACTATTCCAAATCGCACACTCAGTGC
101311291 CGAACATAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (40 bp):
TATAACCAAAACTATTCCAAATCGCACACTCAGTGCTATT
Found at i:101313121 original size:21 final size:21
Alignment explanation
Indices: 101313095--101313143 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
101313085 CAAAACCCTG
101313095 TTTTCAAGATCTGAGA-TCCTA
1 TTTTCAAGATCTGAGACT-CTA
* *
101313116 TTTTCAAGTTCTGATACTCTA
1 TTTTCAAGATCTGAGACTCTA
101313137 TTTTCAA
1 TTTTCAA
101313144 AACATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45
Consensus pattern (21 bp):
TTTTCAAGATCTGAGACTCTA
Found at i:101313747 original size:49 final size:49
Alignment explanation
Indices: 101313619--101313747 Score: 150
Period size: 49 Copynumber: 2.6 Consensus size: 49
101313609 GGGCTTGAAA
* * * *** **
101313619 ATATCTTATGTTCCTTAGCCATTCTGATAAGTGTGTTAAGTGTGAGAAC
1 ATATTTTATGTTTCTCAGCCATTCTGATAAGCACGTTAAGTGCAAGAAC
* * *
101313668 ATTTTTTATATTTCTCAGCCATTCTAATAAGCACGTTAAGTGCAAGAAC
1 ATATTTTATGTTTCTCAGCCATTCTGATAAGCACGTTAAGTGCAAGAAC
*
101313717 ATATTTTATGTTTCTCAGCCATTTTGATAAG
1 ATATTTTATGTTTCTCAGCCATTCTGATAAG
101313748 ATAAGTATTT
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 65 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (49 bp):
ATATTTTATGTTTCTCAGCCATTCTGATAAGCACGTTAAGTGCAAGAAC
Found at i:101319116 original size:22 final size:22
Alignment explanation
Indices: 101319061--101319118 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
101319051 CTCAAGGCCA
*
101319061 TAAACATGACAGCACATAGTCG
1 TAAACATGATAGCACATAGTCG
*
101319083 TAAACAGGATAGCACATAGTCG
1 TAAACATGATAGCACATAGTCG
*
101319105 TAAACATCATAGCA
1 TAAACATGATAGCA
101319119 ACGTGCCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (22 bp):
TAAACATGATAGCACATAGTCG
Found at i:101319349 original size:22 final size:22
Alignment explanation
Indices: 101319316--101319376 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
101319306 ATACATTTGA
*
101319316 CACACAGCCATAATCAGGTTGG
1 CACAAAGCCATAATCAGGTTGG
* * *
101319338 CATAGAGCCAT-ATGTAGGTTGG
1 CACAAAGCCATAAT-CAGGTTGG
101319360 CACAAAGCCATAATCAG
1 CACAAAGCCATAATCAG
101319377 AATAATTGGC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
21 2 0.06
22 27 0.87
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
CACAAAGCCATAATCAGGTTGG
Found at i:101319577 original size:41 final size:41
Alignment explanation
Indices: 101319518--101319640 Score: 194
Period size: 41 Copynumber: 3.0 Consensus size: 41
101319508 TAAAAGCCAC
* *
101319518 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAAT
1 CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAAT
*
101319559 CGGTGGATCCACGATCGTCGAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAAT
*
101319600 CAGTGGATCCAC-AGTCGTCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGA-TCGTCAAGCAACCATGCGATCCTCAAT
101319641 TTCTTCCTCT
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 1 0.01
41 75 0.99
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (41 bp):
CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAAT
Found at i:101319934 original size:27 final size:26
Alignment explanation
Indices: 101319905--101320272 Score: 215
Period size: 27 Copynumber: 13.7 Consensus size: 26
101319895 ATCTACAACC
* *
101319905 CAAGGGTATTTCGAAAATTTTTCAAAC
1 CAAGGGTATTTCG-TAATTTTTCAAAT
** *
101319932 CAATAGTATTTCTGTAATTTTTGAAAGT
1 CAAGGGTATTTC-GTAATTTTTCAAA-T
*
101319960 CAAGGGTATTTTTGTAATTTTGT-AAAT
1 CAAGGGTA-TTTCGTAATTTT-TCAAAT
* *
101319987 CAAGGGTATTTTTGTAATTTTCCAAAT
1 CAAGGGTA-TTTCGTAATTTTTCAAAT
101320014 CAAGGGTATTTCTGTAA-TTTTCTAAAT
1 CAAGGGTATTTC-GTAATTTTTC-AAAT
* * * *
101320041 TAGGGGTATTGTGGTAATTTTACAAAT
1 CAAGGGTATT-TCGTAATTTTTCAAAT
* * *
101320068 CGAGGGTATTTCGATAATTTTACAAGT
1 CAAGGGTATTTCG-TAATTTTTCAAAT
* **
101320095 CGAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTC-GTAATTTTTCAAAT
* * * * *
101320122 TAGGGGTATTTTGTTAATTTTACAAAC
1 CAAGGGTATTTCG-TAATTTTTCAAAT
* * * *
101320149 CAAGGGTATTTTGGAATTTTACAAAC
1 CAAGGGTATTTCGTAATTTTTCAAAT
* * * *
101320175 CAGGGGTATTTGGTAATTTTGCTAAT
1 CAAGGGTATTTCGTAATTTTTCAAAT
** * *
101320201 TGAGGGTATTTTGGTAATTTTGT-AAAC
1 CAAGGGTA-TTTCGTAATTTT-TCAAAT
* *
101320228 CAAGGGTA-TTCAATAACTTTTT-AAAC
1 CAAGGGTATTTC-GTAA-TTTTTCAAAT
101320254 CAAGGGTATTTCAGTAATT
1 CAAGGGTATTTC-GTAATT
101320273 CTACCCCACA
Statistics
Matches: 276, Mismatches: 48, Indels: 35
0.77 0.13 0.10
Matches are distributed among these distances:
25 2 0.01
26 65 0.24
27 181 0.66
28 24 0.09
29 4 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (26 bp):
CAAGGGTATTTCGTAATTTTTCAAAT
Found at i:101320034 original size:54 final size:54
Alignment explanation
Indices: 101319937--101320264 Score: 238
Period size: 54 Copynumber: 6.1 Consensus size: 54
101319927 CAAACCAATA
* ** * *
101319937 GTATTTCTGTAATTTTTGAAAGTCAAGGGTATTTTTGTAATTTTGTAAATCAAGG
1 GTATTTTTGTAATTTTACAAA-TCAAGGGTATTTCTGTAATTTTATAAATCAAGG
* * * *
101319992 GTATTTTTGTAATTTTCCAAATCAAGGGTATTTCTGTAATTTTCTAAATTAGGG
1 GTATTTTTGTAATTTTACAAATCAAGGGTATTTCTGTAATTTTATAAATCAAGG
* * * * * *
101320046 GTATTGTGGTAATTTTACAAATCGAGGGTATTTC-GATAATTTTACAAGTCGAGG
1 GTATTTTTGTAATTTTACAAATCAAGGGTATTTCTG-TAATTTTATAAATCAAGG
** * * * * *
101320100 GTATTTCAGTAATTTCACAAATTAGGGGTATTT-TGTTAATTTTACAAACCAAGG
1 GTATTTTTGTAATTTTACAAATCAAGGGTATTTCTG-TAATTTTATAAATCAAGG
* * * * * **
101320154 GTA-TTTTGGAATTTTACAAACCAGGGGTATTT-GGTAATTTTGCT-AATTGAGG
1 GTATTTTTGTAATTTTACAAATCAAGGGTATTTCTGTAATTTT-ATAAATCAAGG
* ** * ** *
101320206 GTATTTTGGTAATTTTGTAAACCAAGGGTA-TTCAATAACTTTT-TAAACCAAGG
1 GTATTTTTGTAATTTTACAAATCAAGGGTATTTCTGTAA-TTTTATAAATCAAGG
101320259 GTATTT
1 GTATTT
101320265 CAGTAATTCT
Statistics
Matches: 216, Mismatches: 50, Indels: 16
0.77 0.18 0.06
Matches are distributed among these distances:
52 18 0.08
53 60 0.28
54 120 0.56
55 18 0.08
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
GTATTTTTGTAATTTTACAAATCAAGGGTATTTCTGTAATTTTATAAATCAAGG
Found at i:101320074 original size:81 final size:80
Alignment explanation
Indices: 101319881--101320272 Score: 310
Period size: 81 Copynumber: 4.9 Consensus size: 80
101319871 CACCCTAAAA
* * * ** * * * * **
101319881 GGGTGTTTTGGTAAATCTACAACCCAAGGGTATTTCGAAAATTTTTCAAACCAATAGTATTTCTG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTG-TAATTTTACAAATCAAGGGTATTTCTG
* *
101319946 TAATTTT-TGAAAGTCAA
65 TAATTTTCT-AAA-TTAG
* ** *
101319963 GGGTATTTTTGTAATTTTGTAAATCAAGGGTATTTTTGTAATTTTCCAAATCAAGGGTATTTCTG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTA-TTTTGTAATTTTACAAATCAAGGGTATTTCTG
101320028 TAATTTTCTAAATTAG
65 TAATTTTCTAAATTAG
* * * * * *
101320044 GGGTATTGTGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAGTCGAGGGTATTTCAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTG-TAATTTTACAAATCAAGGGTATTTCTG
*
101320109 TAA-TTTCACAAATTAG
65 TAATTTTC-TAAATTAG
* * * * * *
101320125 GGGTATTTTGTTAATTTTACAAACCAAGGGTATTTTGGAATTTTACAAACCAGGGGTATTT-GGT
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGTAATTTTACAAATCAAGGGTATTTCTGT
101320189 AATTTTGCT-AATT-G
66 AATTTT-CTAAATTAG
** * *** * * *
101320203 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTCAATAACTTTT-TAAACCAAGGGTATTTCA
1 -GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGTAA-TTTTACAAATCAAGGGTATTTCT
101320267 GTAATT
64 GTAATT
101320273 CTACCCCACA
Statistics
Matches: 252, Mismatches: 49, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
78 1 0.00
79 55 0.22
80 40 0.16
81 95 0.38
82 56 0.22
83 5 0.02
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGTAATTTTACAAATCAAGGGTATTTCTGT
AATTTTCTAAATTAG
Found at i:101320364 original size:27 final size:27
Alignment explanation
Indices: 101320254--101320352 Score: 144
Period size: 27 Copynumber: 3.7 Consensus size: 27
101320244 CTTTTTAAAC
*
101320254 CAAGGGTATTTCAGTAATTCTACCCCA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* * *
101320281 CAAGAGTATTTCAGCAATTCTATCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
*
101320308 CAAGGGCATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
*
101320335 CAGGGGTATTTCAGTAAT
1 CAAGGGTATTTCAGTAAT
101320353 ATTAGCCTAC
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTCTACCCTA
Found at i:101326716 original size:55 final size:54
Alignment explanation
Indices: 101326657--101326765 Score: 130
Period size: 55 Copynumber: 2.0 Consensus size: 54
101326647 TGTTAATTTG
*
101326657 ACAGGTTCGACCACGAGTGT-TAGACACGGGCGTGTCACACGCCCGTGCTGTTTTA
1 ACAGGTTCGACCACG-GT-TCTACACACGGGCGTGTCACACGCCCGTGCTGTTTTA
* * * * *
101326712 ACAGGTTCGTCTACGGTTCCTCCACACGGGCGTGTCACACGCCTGTGTTGTTTT
1 ACAGGTTCGACCACGGTT-CTACACACGGGCGTGTCACACGCCCGTGCTGTTTT
101326766 TGTAGGCTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 1 0.02
54 2 0.04
55 43 0.93
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.28
Consensus pattern (54 bp):
ACAGGTTCGACCACGGTTCTACACACGGGCGTGTCACACGCCCGTGCTGTTTTA
Found at i:101330643 original size:16 final size:16
Alignment explanation
Indices: 101330622--101330652 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
101330612 TCTCAAAAGA
*
101330622 ATAAAGAATACAAAAC
1 ATAAAGAAAACAAAAC
101330638 ATAAAGAAAACAAAA
1 ATAAAGAAAACAAAA
101330653 AACTCTTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
ATAAAGAAAACAAAAC
Found at i:101331487 original size:34 final size:34
Alignment explanation
Indices: 101331448--101331516 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
101331438 ATCACAAGTA
*
101331448 TAGACCAATAATCACTAGGCTTTCACAAAATCAT
1 TAGACCAATAATCACTAGGCTTTCAAAAAATCAT
101331482 TAGACCAATAATCACTAGGCTTTCAAAAAATCAT
1 TAGACCAATAATCACTAGGCTTTCAAAAAATCAT
101331516 T
1 T
101331517 CTCATAGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.28
Consensus pattern (34 bp):
TAGACCAATAATCACTAGGCTTTCAAAAAATCAT
Found at i:101338217 original size:40 final size:39
Alignment explanation
Indices: 101338188--101338450 Score: 418
Period size: 40 Copynumber: 6.6 Consensus size: 39
101338178 GCTACTTGCT
**
101338188 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGTTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATAGTAACTCGCA
101338228 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATAGTAACTCGCA
* *
101338268 CAAATGCCTTCGGGACATAGCCCAGAAATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGAATAGTAACTCGCA
*
101338308 CAAATGCCTTTGGGACTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCA
*
101338348 CAAATGCCTTCGGGACTTAGACCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCA
101338388 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCA
101338428 CAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
101338451 CGTTATCATC
Statistics
Matches: 211, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
39 3 0.01
40 206 0.98
41 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.22
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATAGTAACTCGCA
Found at i:101341292 original size:30 final size:30
Alignment explanation
Indices: 101341240--101341367 Score: 165
Period size: 30 Copynumber: 4.4 Consensus size: 30
101341230 GTGAATCCGT
*
101341240 ACACTTAGTGCTATAT-ATTTTCAGCTCGC
1 ACACTTAGTGCTATATAATTTTCAACTCGC
*
101341269 ACACTTAGTGCTATATAATTTTCAGCTCGC
1 ACACTTAGTGCTATATAATTTTCAACTCGC
101341299 ACACTTAGTGCTATATAA---TCAAACTCGC
1 ACACTTAGTGCTATATAATTTTC-AACTCGC
* * * *
101341327 ACACTTAGTGCTGTACAATTTTAAACCCGC
1 ACACTTAGTGCTATATAATTTTCAACTCGC
101341357 ACACTTAGTGC
1 ACACTTAGTGC
101341368 CAATCTTGTC
Statistics
Matches: 89, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
27 2 0.02
28 22 0.25
29 16 0.18
30 48 0.54
31 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (30 bp):
ACACTTAGTGCTATATAATTTTCAACTCGC
Found at i:101341338 original size:58 final size:58
Alignment explanation
Indices: 101341240--101341367 Score: 168
Period size: 58 Copynumber: 2.2 Consensus size: 58
101341230 GTGAATCCGT
* * * * * *
101341240 ACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGC
1 ACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAACCCGC
*
101341299 ACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAACCCGC
1 ACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAACCCGC
101341357 ACACTTAGTGC
1 ACACTTAGTGC
101341368 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.69
59 17 0.28
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (58 bp):
ACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAACCCGC
Found at i:101349185 original size:29 final size:29
Alignment explanation
Indices: 101349153--101349282 Score: 158
Period size: 29 Copynumber: 4.5 Consensus size: 29
101349143 ATAGTGAATC
*
101349153 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACT
*
101349182 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAACT
*
101349212 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AACT
* * *
101349240 CGCACACTTAGTGCTGTACAATTTTAAAC-
1 CGCACACTTAGTGCTATA-TATTTTCAACT
101349269 CGCACACTTAGTGC
1 CGCACACTTAGTGC
101349283 CAATCTTGTC
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
27 2 0.02
28 20 0.22
29 35 0.39
30 32 0.36
31 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAACT
Found at i:101349208 original size:30 final size:30
Alignment explanation
Indices: 101349153--101349282 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
101349143 ATAGTGAATC
*
101349153 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
101349182 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
101349212 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * *
101349240 CGCACACTTAGTGCTGTACAATTTTAAAC-
1 CGCACACTTAGTGCTATATAATTTTCAACT
101349269 CGCACACTTAGTGC
1 CGCACACTTAGTGC
101349283 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 4, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 33 0.36
30 34 0.37
31 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:101357413 original size:40 final size:40
Alignment explanation
Indices: 101357347--101357642 Score: 466
Period size: 40 Copynumber: 7.6 Consensus size: 40
101357337 GCTACTTGCT
**
101357347 CAAATGCCTTC-GGACTTAGCCCGG-ATATAGTAGTTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
101357386 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
101357426 CAAATGCCTTC--GACTTAGCCC-G-A-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
101357461 CAAATGCCTT-GGGACTTAGCCCAGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
101357500 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
101357540 CAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
101357580 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
101357620 CAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
101357643 CGTTATCATC
Statistics
Matches: 243, Mismatches: 7, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
35 22 0.09
36 10 0.04
37 3 0.01
38 11 0.05
39 32 0.13
40 165 0.68
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:101357547 original size:114 final size:116
Alignment explanation
Indices: 101357347--101357642 Score: 456
Period size: 114 Copynumber: 2.5 Consensus size: 116
101357337 GCTACTTGCT
* * **
101357347 CAAATGCCTTCGGACTTAGCCCGGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTGGGACTTAGCCCGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
101357412 TATAGTAACTCGCACAAATGCCTTC-GACTTAGCCCG-A-TAGTAACTCGCA
65 TATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGAATTAGTAACTCGCA
*
101357461 CAAATGCCTTGGGACTTAGCCCAGAATTAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTGGGACTTAGCCC-GAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
101357526 -ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTCGCA
65 TA-TAGTAACTCGCACAAATGCCTTC-GGACTTAGCCCG-AATTAGTAACTCGCA
101357580 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTT-GGGACTTAGCCC-GAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
101357643 CGTTATCATC
Statistics
Matches: 167, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
113 1 0.01
114 79 0.47
115 3 0.02
116 11 0.07
118 1 0.01
119 22 0.13
120 50 0.30
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (116 bp):
CAAATGCCTTGGGACTTAGCCCGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGAATTAGTAACTCGCA
Found at i:101360139 original size:10 final size:10
Alignment explanation
Indices: 101360124--101360163 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
101360114 CTGTTTTGTA
101360124 CATGATATGC
1 CATGATATGC
101360134 CATGATATGC
1 CATGATATGC
*
101360144 ACCTGATATGC
1 -CATGATATGC
101360155 CATGATATG
1 CATGATATG
101360164 TTCATATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (10 bp):
CATGATATGC
Found at i:101360267 original size:25 final size:25
Alignment explanation
Indices: 101360207--101360278 Score: 94
Period size: 25 Copynumber: 2.9 Consensus size: 25
101360197 TCAAGGAAGT
101360207 TCAAAAGGGCTTTGCCCCAGTTTAC
1 TCAAAAGGGCTTTGCCCCAGTTTAC
*
101360232 TGAAAAGGGCTTTGCCCCAGTTTA-
1 TCAAAAGGGCTTTGCCCCAGTTTAC
*
101360256 TCCAAATA-GGCTTTGCCCTAGTT
1 T-CAAA-AGGGCTTTGCCCCAGTT
101360279 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 1 0.02
25 40 0.95
26 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (25 bp):
TCAAAAGGGCTTTGCCCCAGTTTAC
Found at i:101360290 original size:24 final size:24
Alignment explanation
Indices: 101360207--101360291 Score: 93
Period size: 25 Copynumber: 3.5 Consensus size: 24
101360197 TCAAGGAAGT
101360207 TCAAAAGGGCTTTGCCCCAGTTTA
1 TCAAAAGGGCTTTGCCCCAGTTTA
*
101360231 CTGAAAAGGGCTTTGCCCCAGTTTA
1 -TCAAAAGGGCTTTGCCCCAGTTTA
*
101360256 TCCAAATA-GGCTTTGCCCTAG-TTA
1 T-CAAA-AGGGCTTTGCCCCAGTTTA
*
101360280 TTAAAAGAGGCT
1 TCAAAAG-GGCT
101360292 AGGCCTCTAG
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
22 1 0.02
23 3 0.06
24 9 0.17
25 38 0.73
26 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
TCAAAAGGGCTTTGCCCCAGTTTA
Found at i:101360534 original size:31 final size:31
Alignment explanation
Indices: 101360499--101360582 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
101360489 CGTTTACAGT
101360499 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
101360530 AAAGGCTTTGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
101360561 AAAGGCTTCGGCCTAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
101360583 TTGAGACTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:101364137 original size:21 final size:21
Alignment explanation
Indices: 101364112--101364153 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
101364102 GTCTGCTGAG
101364112 GGGATCAAGGTAGACCCTCGA
1 GGGATCAAGGTAGACCCTCGA
*
101364133 GGGATTAAGGTAGACCCTCGA
1 GGGATCAAGGTAGACCCTCGA
101364154 AAGATTGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.33, T:0.17
Consensus pattern (21 bp):
GGGATCAAGGTAGACCCTCGA
Found at i:101364159 original size:21 final size:21
Alignment explanation
Indices: 101364118--101364159 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
101364108 TGAGGGGATC
**
101364118 AAGGTAGACCCTCGAGGGATT
1 AAGGTAGACCCTCGAAAGATT
101364139 AAGGTAGACCCTCGAAAGATT
1 AAGGTAGACCCTCGAAAGATT
101364160 GAGGCAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (21 bp):
AAGGTAGACCCTCGAAAGATT
Found at i:101368088 original size:10 final size:10
Alignment explanation
Indices: 101368073--101368112 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
101368063 CTGTTTTGTA
101368073 CATGATATGC
1 CATGATATGC
101368083 CATGATATGC
1 CATGATATGC
*
101368093 ACCTGATATGC
1 -CATGATATGC
101368104 CATGATATG
1 CATGATATG
101368113 TTCATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (10 bp):
CATGATATGC
Found at i:101368204 original size:24 final size:24
Alignment explanation
Indices: 101368157--101368210 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
101368147 GAAGGAAGTG
*
101368157 CAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAGGGCTTTACCCCAGTTTAT
*
101368181 CAAAATGGGTTTTACCCCAG-TTAT
1 CAAAA-GGGCTTTACCCCAGTTTAT
*
101368205 TAAAAG
1 CAAAAG
101368211 ATGCTAGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 1 0.04
24 13 0.50
25 12 0.46
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (24 bp):
CAAAAGGGCTTTACCCCAGTTTAT
Found at i:101371308 original size:11 final size:11
Alignment explanation
Indices: 101371292--101371320 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
101371282 GTTTACTCTT
101371292 TATATTGATTC
1 TATATTGATTC
101371303 TATATTGATTC
1 TATATTGATTC
101371314 TATATTG
1 TATATTG
101371321 TTTATGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.55
Consensus pattern (11 bp):
TATATTGATTC
Found at i:101371948 original size:15 final size:15
Alignment explanation
Indices: 101371928--101371958 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
101371918 GCCACCTCAT
*
101371928 TTATATATCTTTTAC
1 TTATATATATTTTAC
101371943 TTATATATATTTTAC
1 TTATATATATTTTAC
101371958 T
1 T
101371959 GCAGTATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATATATATTTTAC
Found at i:101374056 original size:40 final size:40
Alignment explanation
Indices: 101373990--101374156 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
101373980 AAATTGAATG
* * *
101373990 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
101374029 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
101374069 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
101374109 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
101374149 ATATCCGG
1 ATATCCGG
101374157 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:101384773 original size:68 final size:70
Alignment explanation
Indices: 101384701--101384898 Score: 285
Period size: 71 Copynumber: 2.8 Consensus size: 70
101384691 ACACCCTGTA
* * *
101384701 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
101384763 ATAAAT
65 ATAAAT
* *
101384769 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
*
101384834 GTAAAT
65 ATAAAT
*
101384840 GTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
101384899 AGACAAATCG
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.03
70 1 0.01
71 91 0.76
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCACATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:101384824 original size:71 final size:71
Alignment explanation
Indices: 101384735--101384898 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
101384725 GAGATGTATC
*
101384735 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGA
101384800 AGGACA
66 AGGACA
*
101384806 CCATGTAGACAAGAGAGCTACGTGAAAGGTAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGA
101384871 AGGACA
66 AGGACA
101384877 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
101384899 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGA
AGGACA
Found at i:101388215 original size:40 final size:40
Alignment explanation
Indices: 101388113--101388296 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
101388103 AAATTGAATG
* * * * * *
101388113 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
101388153 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
101388193 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
101388233 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
101388273 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
101388297 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:101388321 original size:80 final size:80
Alignment explanation
Indices: 101388153--101388341 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
101388143 GCTGGAAATT
* * *
101388153 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
101388218 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
101388233 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
101388296 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
101388313 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
101388342 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:101393037 original size:30 final size:29
Alignment explanation
Indices: 101392943--101393044 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
101392933 TATAGTGAAT
* * *
101392943 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
101392972 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
101393000 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
101393030 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
101393045 CGTGACCAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:101400880 original size:30 final size:29
Alignment explanation
Indices: 101400786--101400887 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
101400776 TATAGTGAAT
* * *
101400786 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
101400815 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
101400843 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
101400873 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
101400888 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:101402534 original size:40 final size:40
Alignment explanation
Indices: 101402479--101402623 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
101402469 ATGTCACAAG
* * * *
101402479 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
101402519 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
101402559 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
101402600 GCCTTCGAGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
101402624 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 60 0.65
41 27 0.29
42 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:101403339 original size:2 final size:2
Alignment explanation
Indices: 101403332--101403365 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
101403322 ATGTGCAAAC
101403332 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101403366 GTGCAAGAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101407990 original size:31 final size:31
Alignment explanation
Indices: 101407955--101408018 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
101407945 CCTTTGCATG
101407955 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
101407986 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
101408017 TT
1 TT
101408019 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:101408261 original size:24 final size:24
Alignment explanation
Indices: 101408210--101408376 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
101408200 GCTTTATCAT
* *
101408210 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
101408235 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
101408259 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
101408282 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
101408306 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
101408330 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
101408354 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
101408377 TCACTTCCTC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 100 0.74
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:101408310 original size:71 final size:71
Alignment explanation
Indices: 101408209--101408376 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
101408199 TGCTTTATCA
*
101408209 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
101408273 AGCCCTTT
64 AGCCCTTT
* * **
101408281 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
101408346 CCCTTT
66 CCCTTT
101408352 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
101408377 TCACTTCCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 53 0.60
72 36 0.40
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:101408451 original size:20 final size:20
Alignment explanation
Indices: 101408426--101408486 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
101408416 TTATGATTAC
101408426 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
101408446 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
101408466 TTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
101408486 A
1 A
101408487 CCATATTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:101408457 original size:11 final size:11
Alignment explanation
Indices: 101408426--101408481 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
101408416 TTATGATTAC
101408426 ATCATGTGCAT
1 ATCATGTGCAT
*
101408437 ATCA--TACAT
1 ATCATGTGCAT
101408446 ATCATGTGCAT
1 ATCATGTGCAT
*
101408457 ATCA--TACAT
1 ATCATGTGCAT
*
101408466 TTCATGTGCAT
1 ATCATGTGCAT
101408477 ATCAT
1 ATCAT
101408482 ACATACCATA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:101408561 original size:25 final size:25
Alignment explanation
Indices: 101408529--101408576 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
101408519 ATACATAAAC
* * *
101408529 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
101408554 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
101408577 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:101409909 original size:81 final size:81
Alignment explanation
Indices: 101409816--101410080 Score: 347
Period size: 81 Copynumber: 3.3 Consensus size: 81
101409806 GGGTATTTTA
* * * ** * *
101409816 GTAATTTTGTAAATCAAGGGTAAAAC-AGTAATTCTGTAAATCAATGGTAAAACAGTAATTCTAT
1 GTAATTCTGTAAATCGAGGGTAAAACGA-TAATTATGTAAATCAGGGGTAAAACAGTAATTATGT
*
101409880 AAA-TCGAGGGTAAAACG
65 AAATTAG-GGGTAAAACG
* * *
101409897 GTAATTCTGTAAATCGAGGGTAAAATGATAATTATGTAAATCGGGGGTAAAA-TGATAATTATGT
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACAG-TAATTATGT
101409961 AAATTAGGGGTAAAACG
65 AAATTAGGGGTAAAACG
* * *
101409978 GTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATTAGGGGTAAAACGGTAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACAGTAATTATGTA
101410043 AATTAGGGGTAAAACG
66 AATTAGGGGTAAAACG
*
101410059 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
101410081 CTTTAGTAAT
Statistics
Matches: 162, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
80 1 0.01
81 157 0.97
82 4 0.02
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACAGTAATTATGTA
AATTAGGGGTAAAACG
Found at i:101410080 original size:27 final size:27
Alignment explanation
Indices: 101409816--101410073 Score: 282
Period size: 27 Copynumber: 9.6 Consensus size: 27
101409806 GGGTATTTTA
* *
101409816 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAACG
* *
101409843 GTAATTCTGTAAATCAATGGTAAAACA
1 GTAATTCTGTAAATCAAGGGTAAAACG
* *
101409870 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* *
101409897 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* * ** *
101409924 ATAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* * * *
101409951 ATAATTATGTAAATTAGGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* *
101409978 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* * * *
101410005 ATAATTATGTAAATTAGGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* * *
101410032 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
101410059 GTAATTCTGTAAATC
1 GTAATTCTGTAAATC
101410074 GGGGGTACTT
Statistics
Matches: 202, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 202 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCAAGGGTAAAACG
Found at i:101410107 original size:27 final size:27
Alignment explanation
Indices: 101410077--101410175 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
101410067 GTAAATCGGG
*
101410077 GGTACTTT-AGTAATTTTACAAGTCGAA
1 GGTA-TTTCAGTAATTTTACAAATCGAA
* * *
101410104 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAA
* *
101410131 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTTCAGTAATTTTACAAATCGAA
*
101410157 GGGTATTTCGGTAATTTTA
1 -GGTATTTCAGTAATTTTA
101410176 GTAAACTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 5 0.08
27 54 0.92
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCGAA
Found at i:101410115 original size:54 final size:53
Alignment explanation
Indices: 101410069--101410173 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 53
101410059 GTAATTCTGT
* *
101410069 AAATCGGGGGTACTTT-AGTAATTTTACAAGTCGAA-GGTATTTCGGTAAATTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCGGT-AATTTAC
* *
101410123 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTT
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTT
101410174 TAGTAAACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
53 11 0.24
54 34 0.76
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.37
Consensus pattern (53 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTTAC
Found at i:101410189 original size:27 final size:27
Alignment explanation
Indices: 101410085--101410190 Score: 74
Period size: 27 Copynumber: 3.9 Consensus size: 27
101410075 GGGGTACTTT
* *
101410085 AGTAATTTTACAAGTCGAAG-GTATTTC
1 AGTAATTTTACAA-ACTAAGAGTATTTC
* * * *
101410112 GGTAAATTTACAAA-TCGAGGGTATTTC
1 AGTAATTTTACAAACT-AAGAGTATTTC
* *
101410139 AGTATTTTTACAAACTAAGGGTATTTC
1 AGTAATTTTACAAACTAAGAGTATTTC
* *
101410166 GGTAATTTTAGTAAACTAA-AGTATT
1 AGTAATTTTA-CAAACTAAGAGTATT
101410191 CTAAACAGGG
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (27 bp):
AGTAATTTTACAAACTAAGAGTATTTC
Found at i:101412654 original size:48 final size:48
Alignment explanation
Indices: 101412602--101412756 Score: 168
Period size: 48 Copynumber: 3.2 Consensus size: 48
101412592 CATGTTCCAA
* * * *
101412602 ACATGGTCTTACATTAGCT-TACATGTTGAGGCCGATGCCATGTCATAG
1 ACATGGTCTTACACTAGCTCT-CATATCGAGGCCGATGCCATGTCCTAG
* * * * * *
101412650 ACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATATCCCAG
1 ACATGGTCTTACACTAGCTCTCATATCGAGGCCGATGCCATGTCCTAG
* * * *
101412698 ACATGGTCTTACACTGGCTCTCATATCGTGGCCGACGCTATGTCCTAG
1 ACATGGTCTTACACTAGCTCTCATATCGAGGCCGATGCCATGTCCTAG
101412746 ACATGGTCTTA
1 ACATGGTCTTA
101412757 AACTGGCACA
Statistics
Matches: 87, Mismatches: 19, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
48 86 0.99
49 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (48 bp):
ACATGGTCTTACACTAGCTCTCATATCGAGGCCGATGCCATGTCCTAG
Found at i:101412762 original size:48 final size:49
Alignment explanation
Indices: 101412631--101412773 Score: 164
Period size: 48 Copynumber: 3.0 Consensus size: 49
101412621 TACATGTTGA
* * * *
101412631 GGCCGATGCCATGTCATAGACATGGTCTTACACTAGCTCTCGTCTCAAT
1 GGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATCAAT
* * *
101412680 -GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATATC-GT
1 GGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATCAAT
* * * * *
101412727 GGCCGACGCTATGTCCTAGACATGGTCTTAAACTGGCACACATATCA
1 GGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATCA
101412774 CCCAAATGTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 1 0.01
48 77 0.99
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (49 bp):
GGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATCAAT
Found at i:101417169 original size:23 final size:23
Alignment explanation
Indices: 101417143--101417190 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
101417133 CAGCTAATAC
* * *
101417143 AACAATATCGCAGCGAAGCTGCT
1 AACAATAACACAGCAAAGCTGCT
*
101417166 AACAGTAACACAGCAAAGCTGCT
1 AACAATAACACAGCAAAGCTGCT
101417189 AA
1 AA
101417191 TAACAATAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.25, G:0.19, T:0.15
Consensus pattern (23 bp):
AACAATAACACAGCAAAGCTGCT
Found at i:101424920 original size:39 final size:40
Alignment explanation
Indices: 101424876--101425039 Score: 149
Period size: 39 Copynumber: 4.2 Consensus size: 40
101424866 CGGAATATAA
101424876 CCGGAT-TAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
101424915 CCGGATA-GATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
101424954 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
101424994 CCGGATATAATTTCCAGCA-TATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
101425032 CCGGATAT
1 CCGGATAT
101425040 CATTCAATTT
Statistics
Matches: 101, Mismatches: 21, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
38 14 0.14
39 50 0.50
40 37 0.37
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:101432819 original size:40 final size:40
Alignment explanation
Indices: 101432774--101432939 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
101432764 CGGAATATAA
*
101432774 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
101432814 CCGGATA-GATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
101432853 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * ** *
101432893 CCGGATATAATTTCCAGCATAGTTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
101432932 CCGGATAT
1 CCGGATAT
101432940 CATTCAATTT
Statistics
Matches: 101, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 46 0.46
40 54 0.53
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:101432838 original size:39 final size:39
Alignment explanation
Indices: 101432790--101432899 Score: 132
Period size: 39 Copynumber: 2.8 Consensus size: 39
101432780 TTAATCACGT
* *
101432790 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGA-TAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAGCAACTA
* * *
101432829 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAGCAACTA
*
101432869 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
101432900 TAATTTCCAG
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
39 32 0.52
40 29 0.48
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAGCAACTA
Found at i:101436142 original size:33 final size:33
Alignment explanation
Indices: 101436080--101436145 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
101436070 ATGCAATAAC
** *
101436080 AGTCTGGGCCAGAGCCCTATTTAGTAACAGTAT
1 AGTCTGGGCCAGAGCCCTATACAGAAACAGTAT
**
101436113 AGTCTGGGCCTTAGCCCTATACAGAAACAGTAT
1 AGTCTGGGCCAGAGCCCTATACAGAAACAGTAT
101436146 GGGCCTAAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (33 bp):
AGTCTGGGCCAGAGCCCTATACAGAAACAGTAT
Found at i:101436343 original size:26 final size:28
Alignment explanation
Indices: 101436312--101436372 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
101436302 AGTAAAATTG
*
101436312 CTAATAATAGTAA-ACGTGGCGAAGCCA
1 CTAATAATAGTAATACGTGGCAAAGCCA
*
101436339 C-AATAGTAGTAATTACGTGGCAAAGCCA
1 CTAATAATAGTAA-TACGTGGCAAAGCCA
101436367 CTAATA
1 CTAATA
101436373 CAATACTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 10 0.34
27 1 0.03
28 14 0.48
29 4 0.14
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (28 bp):
CTAATAATAGTAATACGTGGCAAAGCCA
Found at i:101443079 original size:19 final size:19
Alignment explanation
Indices: 101443055--101443092 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
101443045 TAGGCCACGT
101443055 TGGGCCAAAATGGG-TCGTG
1 TGGGCC-AAATGGGCTCGTG
*
101443074 TGGGCCCAATGGGCTCGTG
1 TGGGCCAAATGGGCTCGTG
101443093 GGCCCTATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.16, C:0.21, G:0.42, T:0.21
Consensus pattern (19 bp):
TGGGCCAAATGGGCTCGTG
Found at i:101446546 original size:37 final size:37
Alignment explanation
Indices: 101446309--101446748 Score: 282
Period size: 37 Copynumber: 11.6 Consensus size: 37
101446299 AATCAGTGAA
* *
101446309 TATTGCTCATTTGAGTAAACATTCAGTATAATCAGT-GG
1 TATTGCTCTTTTGAG--CACATTCAGTATAATCAGTAGG
* * *
101446347 ATATCT-CTCGTTTGAGCAAACATTCAGTAAAATTAGT-GG
1 -TAT-TGCTCTTTTGAGC--ACATTCAGTATAATCAGTAGG
** * *
101446386 ATATCACT-TGTTTTAGCAAGCATTCAGTATAACCAGT-GG
1 -TATTGCTCT-TTTGAGC-A-CATTCAGTATAATCAGTAGG
* * * * *
101446425 ATATAGCTCGTTTGAGAAAACATTTAGTATAATCAGTGGG
1 -TATTGCTCTTTTGAG--CACATTCAGTATAATCAGTAGG
* * * * * * * *
101446465 TATCGCTCGTTTGAGAAGCTTTCAATATATTCAGGAGA
1 TATTGCTCTTTTGAGCA-CATTCAGTATAATCAGTAGG
* * * * *
101446503 CATTGCTCTTTTGAGCACGTTCAGTATAACCAATAGA
1 TATTGCTCTTTTGAGCACATTCAGTATAATCAGTAGG
* * * *
101446540 TATTGCTCATTTGAGCAACTTTTAGTACAATCAGTAGG
1 TATTGCTCTTTTGAGC-ACATTCAGTATAATCAGTAGG
* * * * *
101446578 CATTGTTCTTTTGAGCACGTTTAGTATAATCAGTAGA
1 TATTGCTCTTTTGAGCACATTCAGTATAATCAGTAGG
* * *
101446615 TATTGCT-TGTATGAGCACATTCAGCATAATCAATAGG
1 TATTGCTCT-TTTGAGCACATTCAGTATAATCAGTAGG
* *
101446652 TATTGCTCGTTTGAGCACATAT-AGTATAATTAGTAGG
1 TATTGCTCTTTTGAGCACAT-TCAGTATAATCAGTAGG
* *
101446689 TATTGCTCATTTGTGCACATTCAGTATAATCAGTAGG
1 TATTGCTCTTTTGAGCACATTCAGTATAATCAGTAGG
*
101446726 TATTGCTCGTTTGAGCACATTCA
1 TATTGCTCTTTTGAGCACATTCA
101446749 ACATTTAACT
Statistics
Matches: 318, Mismatches: 67, Indels: 34
0.76 0.16 0.08
Matches are distributed among these distances:
36 2 0.01
37 157 0.49
38 57 0.18
39 98 0.31
40 4 0.01
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.35
Consensus pattern (37 bp):
TATTGCTCTTTTGAGCACATTCAGTATAATCAGTAGG
Found at i:101446681 original size:74 final size:73
Alignment explanation
Indices: 101446298--101446746 Score: 321
Period size: 74 Copynumber: 5.9 Consensus size: 73
101446288 ATATTCCGTG
*
101446298 TAATCAGT-GAATATTGCTCATTTGAGTAAACATTCAGTATAATCAGT-GGATATCT-CTCGTTT
1 TAATCAGTAG-ATATTGCTCATTTGAG--CACATTCAGTATAATCAGTAGG-TAT-TGCTCGTTT
101446360 GAGCAAACATTCAGTA
61 GAGC--ACATT-AGTA
* * * ** ** * * *
101446376 AAATTAGTGGATATCACTTGTTTTAGCAAGCATTCAGTATAACCAGT-GGATATAGCTCGTTTGA
1 TAATCAGTAGATATTGCTCATTTGAGC-A-CATTCAGTATAATCAGTAGG-TATTGCTCGTTTGA
*
101446440 GAAAACATTTAGTA
63 G--CACA-TTAGTA
* * * * * * * * * ** *
101446454 TAATCAGTGGGTATCGCTCGTTTGAGAAGCTTTCAATATATTCAGGAGACATTGCTCTTTTGAGC
1 TAATCAGTAGATATTGCTCATTTGAGCA-CATTCAGTATAATCAGTAGGTATTGCTCGTTTGAGC
*
101446519 ACGTTCAGTA
65 ACATT-AGTA
* * * * * * * *
101446529 TAACCAATAGATATTGCTCATTTGAGCAACTTTTAGTACAATCAGTAGGCATTGTTCTTTTGAGC
1 TAATCAGTAGATATTGCTCATTTGAGC-ACATTCAGTATAATCAGTAGGTATTGCTCGTTTGAGC
*
101446594 ACGTTTAGTA
65 AC-ATTAGTA
** * * *
101446604 TAATCAGTAGATATTGCTTGTATGAGCACATTCAGCATAATCAATAGGTATTGCTCGTTTGAGCA
1 TAATCAGTAGATATTGCTCATTTGAGCACATTCAGTATAATCAGTAGGTATTGCTCGTTTGAGCA
101446669 CATATAGTA
66 CAT-TAGTA
* * *
101446678 TAATTAGTAGGTATTGCTCATTTGTGCACATTCAGTATAATCAGTAGGTATTGCTCGTTTGAGCA
1 TAATCAGTAGATATTGCTCATTTGAGCACATTCAGTATAATCAGTAGGTATTGCTCGTTTGAGCA
101446743 CATT
66 CATT
101446747 CAACATTTAA
Statistics
Matches: 293, Mismatches: 66, Indels: 29
0.76 0.17 0.07
Matches are distributed among these distances:
73 2 0.01
74 98 0.33
75 83 0.28
76 3 0.01
77 27 0.09
78 77 0.26
79 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.35
Consensus pattern (73 bp):
TAATCAGTAGATATTGCTCATTTGAGCACATTCAGTATAATCAGTAGGTATTGCTCGTTTGAGCA
CATTAGTA
Found at i:101446741 original size:111 final size:112
Alignment explanation
Indices: 101446308--101446748 Score: 332
Period size: 111 Copynumber: 3.9 Consensus size: 112
101446298 TAATCAGTGA
* * * *
101446308 ATATTGCTCATTTGAGTAAACAT-TCAGTATAATCAGT-GG-ATATCTCTCGTTTGAGCAAACAT
1 ATATTGCTCATTTGAG-CAACATAT-AGTACAATCAGTAGGCAT-T-GCTCATTTGAGC--ACAT
* * * ** * * * * *
101446370 TCAGTAAAATTAGTGGATATCACTTGTTTTAGCAAGCATTCAGTATAACCAGTGG
60 TCAGTATAATCAGTAGATATTGCTCGTTTGAGC-A-CATTCAGCATAACCAATAG
* * * * * * * * * * * *
101446425 ATATAGCTCGTTTGAGAAAACATTTAGTATAATCAGTGGGTATCGCTCGTTTGAGAAGCTTTCAA
1 ATATTGCTCATTTGAG-CAACATATAGTACAATCAGTAGGCATTGCTCATTTGAGCA-CATTCAG
* * * * * *
101446490 TATATTCAGGAGACATTGCTCTTTTGAGCACGTTCAGTATAACCAATAG
64 TATAATCAGTAGATATTGCTCGTTTGAGCACATTCAGCATAACCAATAG
* * * * * *
101446539 ATATTGCTCATTTGAGCAACTTTTAGTACAATCAGTAGGCATTGTTCTTTTGAGCACGTTTAGTA
1 ATATTGCTCATTTGAGCAACATATAGTACAATCAGTAGGCATTGCTCATTTGAGCACATTCAGTA
* * *
101446604 TAATCAGTAGATATTGCTTGTATGAGCACATTCAGCATAATCAATAG
66 TAATCAGTAGATATTGCTCGTTTGAGCACATTCAGCATAACCAATAG
* * * * * *
101446651 GTATTGCTCGTTTGAGC-ACATATAGTATAATTAGTAGGTATTGCTCATTTGTGCACATTCAGTA
1 ATATTGCTCATTTGAGCAACATATAGTACAATCAGTAGGCATTGCTCATTTGAGCACATTCAGTA
*
101446715 TAATCAGTAGGTATTGCTCGTTTGAGCACATTCA
66 TAATCAGTAGATATTGCTCGTTTGAGCACATTCA
101446749 ACATTTAACT
Statistics
Matches: 260, Mismatches: 60, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
111 68 0.26
112 59 0.23
113 31 0.12
114 30 0.12
115 2 0.01
116 23 0.09
117 42 0.16
118 3 0.01
119 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.35
Consensus pattern (112 bp):
ATATTGCTCATTTGAGCAACATATAGTACAATCAGTAGGCATTGCTCATTTGAGCACATTCAGTA
TAATCAGTAGATATTGCTCGTTTGAGCACATTCAGCATAACCAATAG
Found at i:101451885 original size:30 final size:30
Alignment explanation
Indices: 101451849--101451911 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
101451839 TTTAAGCAAA
101451849 AACCCTCTATTGAAGAACCTCCCAAACTAG
1 AACCCTCTATTGAAGAACCTCCCAAACTAG
101451879 AACCCTCTATTGAAGAACCTCCCAAACTAG
1 AACCCTCTATTGAAGAACCTCCCAAACTAG
101451909 AAC
1 AAC
101451912 TCAAAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.38, C:0.33, G:0.10, T:0.19
Consensus pattern (30 bp):
AACCCTCTATTGAAGAACCTCCCAAACTAG
Found at i:101458773 original size:25 final size:24
Alignment explanation
Indices: 101458739--101458786 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
101458729 TTAGGGTTAT
*
101458739 CGATTTCAGCTCGTATGAGCTTAA
1 CGATTTCAGCTCGCATGAGCTTAA
101458763 CGATTCTCAGCTCGCATGAGCTTA
1 CGATT-TCAGCTCGCATGAGCTTA
101458787 TCATCACTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (24 bp):
CGATTTCAGCTCGCATGAGCTTAA
Found at i:101458796 original size:25 final size:25
Alignment explanation
Indices: 101458744--101458800 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
101458734 GTTATCGATT
* *
101458744 TCAGCTCGTATGAGCTTAACGATTC
1 TCAGCTCGCATGAGCTTAACGATAC
*
101458769 TCAGCTCGCATGAGCTTATC-ATCAC
1 TCAGCTCGCATGAGCTTAACGAT-AC
101458794 TCAGCTC
1 TCAGCTC
101458801 AGAGGAGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 2 0.07
25 26 0.93
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.30
Consensus pattern (25 bp):
TCAGCTCGCATGAGCTTAACGATAC
Found at i:101458837 original size:24 final size:25
Alignment explanation
Indices: 101458805--101458861 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
101458795 CAGCTCAGAG
*
101458805 GAGCTTACCG-TTTACAGATCGTAA
1 GAGCATACCGATTTACAGATCGTAA
* * *
101458829 GAGCATACCGATTTAGAGCTCGTAT
1 GAGCATACCGATTTACAGATCGTAA
*
101458854 GAACATAC
1 GAGCATAC
101458862 ATGTACAGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (25 bp):
GAGCATACCGATTTACAGATCGTAA
Found at i:101464371 original size:42 final size:42
Alignment explanation
Indices: 101464321--101464400 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
101464311 AGTAGCATGC
101464321 TATATGTTAAAGATGCTTGATTGCTATGAAATTAAAAGATGA
1 TATATGTTAAAGATGCTTGATTGCTATGAAATTAAAAGATGA
101464363 TATATGTTAAAGATGCTTGATTGCTATGAAATTAAAAG
1 TATATGTTAAAGATGCTTGATTGCTATGAAATTAAAAG
101464401 CTGAAAGTCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.36
Consensus pattern (42 bp):
TATATGTTAAAGATGCTTGATTGCTATGAAATTAAAAGATGA
Found at i:101464390 original size:22 final size:22
Alignment explanation
Indices: 101464323--101464390 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
101464313 TAGCATGCTA
101464323 TATGTTAAAGATGCTTGATTGC
1 TATGTTAAAGATGCTTGATTGC
* *
101464345 TATGAAATTAAA-A-G-ATGA-T-A
1 TATG---TTAAAGATGCTTGATTGC
101464365 TATGTTAAAGATGCTTGATTGC
1 TATGTTAAAGATGCTTGATTGC
101464387 TATG
1 TATG
101464391 AAATTAAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 16
0.63 0.07 0.30
Matches are distributed among these distances:
17 5 0.15
18 1 0.03
19 1 0.03
20 7 0.21
21 2 0.06
22 11 0.32
23 1 0.03
24 1 0.03
25 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (22 bp):
TATGTTAAAGATGCTTGATTGC
Found at i:101466101 original size:91 final size:91
Alignment explanation
Indices: 101465982--101466180 Score: 344
Period size: 91 Copynumber: 2.2 Consensus size: 91
101465972 TATATGGCAT
* *
101465982 GTATGGGCTAGTGATGTTATGATATGTGTTATGTGAATTTCTTGCCATGTTATATGGTATGCATA
1 GTATAGGCTAGTGATGTTATGATATGTGTTATGTGAATTTCTTGCCATGTTATATGGTATGAATA
*
101466047 TGATTGAGACTATGGGATTGGTTTTG
66 TGATTGAGACTATGGAATTGGTTTTG
101466073 GTATAGGCTAGTGATGTTATGATATGTGTTATGTGAATTTCTTGCCATGTTATATGGTATGAATA
1 GTATAGGCTAGTGATGTTATGATATGTGTTATGTGAATTTCTTGCCATGTTATATGGTATGAATA
*
101466138 TGATTGATACTATGGAATTGGTTTTG
66 TGATTGAGACTATGGAATTGGTTTTG
*
101466164 GTATAGACTATGTGATG
1 GTATAGGCTA-GTGATG
101466181 GAAAAAGGTT
Statistics
Matches: 102, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 96 0.94
92 6 0.06
ACGTcount: A:0.24, C:0.06, G:0.27, T:0.43
Consensus pattern (91 bp):
GTATAGGCTAGTGATGTTATGATATGTGTTATGTGAATTTCTTGCCATGTTATATGGTATGAATA
TGATTGAGACTATGGAATTGGTTTTG
Found at i:101473757 original size:91 final size:91
Alignment explanation
Indices: 101473602--101473800 Score: 353
Period size: 91 Copynumber: 2.2 Consensus size: 91
101473592 TATATGGCAT
*
101473602 GTATAGGCTAGTGATATTATGATATGTGTTATGTGAATTTCTTGCCATGTTATATGATATGAATA
1 GTATAGGCTAGTGATGTTATGATATGTGTTATGTGAATTTCTTGCCATGTTATATGATATGAATA
*
101473667 TGATTGAGACTATGGAATTGGTTTTG
66 TGATTGAGACTATGGAATTGGTTTTA
*
101473693 GTATAGGCTAGTGATGTTATGATATGTGTTATGTGAATTTCTTGCCATGTTATATGGTATGAATA
1 GTATAGGCTAGTGATGTTATGATATGTGTTATGTGAATTTCTTGCCATGTTATATGATATGAATA
101473758 TGATTGAGACTATGGAATTGGTTTTA
66 TGATTGAGACTATGGAATTGGTTTTA
*
101473784 GTATAGACTATGTGATG
1 GTATAGGCTA-GTGATG
101473801 GAAAAAGGTT
Statistics
Matches: 103, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 97 0.94
92 6 0.06
ACGTcount: A:0.27, C:0.06, G:0.25, T:0.42
Consensus pattern (91 bp):
GTATAGGCTAGTGATGTTATGATATGTGTTATGTGAATTTCTTGCCATGTTATATGATATGAATA
TGATTGAGACTATGGAATTGGTTTTA
Found at i:101474212 original size:30 final size:29
Alignment explanation
Indices: 101474176--101474233 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
101474166 ACACGGCCTA
*
101474176 GACACACGGGCGTGTC-TATTGGTCATGTGT
1 GACACACGGGC-TGGCATATTGG-CATGTGT
101474206 GACACACGGGCTGGCATATTGGCATGTG
1 GACACACGGGCTGGCATATTGGCATGTG
101474234 GTCGGTCGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.19, C:0.21, G:0.34, T:0.26
Consensus pattern (29 bp):
GACACACGGGCTGGCATATTGGCATGTGT
Found at i:101478027 original size:44 final size:42
Alignment explanation
Indices: 101477924--101478043 Score: 125
Period size: 44 Copynumber: 2.8 Consensus size: 42
101477914 GTAACCAAAT
* *
101477924 ATTGATGCCACTGTCCCAGACAAGGTCTTACAC-AAAATCAA
1 ATTGATGCCAATGTCCCAGACATGGTCTTACACGAAAATCAA
* ** * *
101477965 ATACGATGCTGATGTCCCAGATATGGTCTTACACGTAAATCATA
1 AT-TGATGCCAATGTCCCAGACATGGTCTTACACGAAAATCA-A
* *
101478009 AGTTGATGCCAATGTCCCAGACGTAGTCTTACACG
1 A-TTGATGCCAATGTCCCAGACATGGTCTTACACG
101478044 CAAACACATA
Statistics
Matches: 62, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
41 2 0.03
42 25 0.40
43 6 0.10
44 28 0.45
45 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (42 bp):
ATTGATGCCAATGTCCCAGACATGGTCTTACACGAAAATCAA
Found at i:101485722 original size:59 final size:57
Alignment explanation
Indices: 101485612--101485724 Score: 129
Period size: 59 Copynumber: 1.9 Consensus size: 57
101485602 CCACTGTCCT
** * *
101485612 AGACAGGGTCTTACACGAAATCAAATACGATGCTGATGTTCCAGATATGGTCTTCCC
1 AGACAGGGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGACATGGTCTTCCC
* * *
101485669 AGACATGGTCTTACATGTAAATCATAAGT-CGATGCCAATGTCCCAGACGTGGTCTT
1 AGACAGGGTCTTACACG-AAATCA-AA-TACGATGCCAATGTCCCAGACATGGTCTT
101485725 ACACGAAAAC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
57 15 0.33
58 6 0.13
59 24 0.52
60 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (57 bp):
AGACAGGGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGACATGGTCTTCCC
Found at i:101494724 original size:15 final size:15
Alignment explanation
Indices: 101494706--101494768 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
101494696 TTTCTTGTCA
*
101494706 TGGATTTCTTTATCT
1 TGGATTTCTCTATCT
*
101494721 TGGATTTCTTTAT-T
1 TGGATTTCTCTATCT
**
101494735 CTGGGCTTCTCTATCT
1 -TGGATTTCTCTATCT
*
101494751 TAGATTTCTCTATCT
1 TGGATTTCTCTATCT
101494766 TGG
1 TGG
101494769 GTTTTTTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
14 1 0.03
15 37 0.95
16 1 0.03
ACGTcount: A:0.13, C:0.17, G:0.16, T:0.54
Consensus pattern (15 bp):
TGGATTTCTCTATCT
Found at i:101497237 original size:27 final size:27
Alignment explanation
Indices: 101497196--101497249 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
101497186 TGTCATGTGA
* *
101497196 AATTGAATGACAAATTATTGTTACATG
1 AATTGAATGACAAATTACTATTACATG
**
101497223 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGACAAATTACTATTACATG
101497250 GCTGTATGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (27 bp):
AATTGAATGACAAATTACTATTACATG
Found at i:101504417 original size:7 final size:7
Alignment explanation
Indices: 101504407--101504469 Score: 63
Period size: 7 Copynumber: 9.0 Consensus size: 7
101504397 ATATCAAACC
101504407 TCAAGGT
1 TCAAGGT
*
101504414 TCAAGAT
1 TCAAGGT
*
101504421 TTAAGGT
1 TCAAGGT
*
101504428 TTAAGGT
1 TCAAGGT
101504435 TCAAGGT
1 TCAAGGT
*
101504442 TCAACGT
1 TCAAGGT
* *
101504449 TTAGGGT
1 TCAAGGT
*
101504456 TCGAGGT
1 TCAAGGT
101504463 TCAAGGT
1 TCAAGGT
101504470 AAAATAATTA
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.33
Consensus pattern (7 bp):
TCAAGGT
Found at i:101504439 original size:28 final size:28
Alignment explanation
Indices: 101504407--101504469 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
101504397 ATATCAAACC
*
101504407 TCAAGGTTCAA-GATTTAAGGTTTAAGGT
1 TCAAGGTTCAACG-TTTAAGGTTCAAGGT
* *
101504435 TCAAGGTTCAACGTTTAGGGTTCGAGGT
1 TCAAGGTTCAACGTTTAAGGTTCAAGGT
101504463 TCAAGGT
1 TCAAGGT
101504470 AAAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.33
Consensus pattern (28 bp):
TCAAGGTTCAACGTTTAAGGTTCAAGGT
Found at i:101506211 original size:23 final size:23
Alignment explanation
Indices: 101506166--101506211 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
101506156 AAATATAATA
*
101506166 TATATATATTTTAATTGATATTT
1 TATATATATTTTAATTGAAATTT
*
101506189 TATATATTTTTATAATT-AAATTT
1 TATATATATTT-TAATTGAAATTT
101506212 AAATTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TATATATATTTTAATTGAAATTT
Found at i:101534591 original size:50 final size:50
Alignment explanation
Indices: 101534465--101534596 Score: 153
Period size: 49 Copynumber: 2.7 Consensus size: 50
101534455 GAGTATAATA
*
101534465 CCGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCGAAATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGACTATCGAAATCCAGG
* ** * *
101534514 CCGACGCCATGTCCCAGACATAATCTTACACTAG-CTCTC-ACATATCCATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGACTATCGA-A-ATCCAGG
* *
101534564 CCGATACCATGTCCCAGACAGGGTCTTACACTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTA
101534597 ACCCATCTCG
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
48 1 0.01
49 34 0.49
50 34 0.49
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (50 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGACTATCGAAATCCAGG
Found at i:101552033 original size:31 final size:31
Alignment explanation
Indices: 101551995--101552058 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
101551985 TCGCCCAACC
* *
101551995 ATGAGAGTTATTCTATTTTGGTCACTCAATT
1 ATGAGAGTGATTCTATTTTAGTCACTCAATT
*
101552026 ATGAGAGTGATTCTATTTTAGTCACTTAATT
1 ATGAGAGTGATTCTATTTTAGTCACTCAATT
101552057 AT
1 AT
101552059 AAAGTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (31 bp):
ATGAGAGTGATTCTATTTTAGTCACTCAATT
Found at i:101554508 original size:40 final size:40
Alignment explanation
Indices: 101554400--101554509 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
101554390 ATTAAATGAT
** * * *
101554400 ATCCGGGCTAAGTTCCGAAGACATTTATGCTGGTAAATAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAAATAC
* * * *
101554440 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAAATAC
101554480 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
101554510 AAATTGTGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAAATAC
Found at i:101554524 original size:40 final size:39
Alignment explanation
Indices: 101554438--101554549 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 39
101554428 GCTGGTAAAT
*
101554438 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGAC
1 ACATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC
* *
101554477 TACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-
1 -ACATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGAC
* *
101554519 A-ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ACATCCGGGTTAAGACCCGAAGGCATTTGTGC
101554550 GGGTTACCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
40 57 0.90
41 1 0.02
43 5 0.08
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
ACATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC
Found at i:101559470 original size:26 final size:26
Alignment explanation
Indices: 101559422--101559472 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
101559412 AATACAAAAT
* * *
101559422 GTAAGAAATGCATATTATTCATTGGC
1 GTAAGAAATACATACTATCCATTGGC
*
101559448 GTAAGAAATACGTACTATCCATTGG
1 GTAAGAAATACATACTATCCATTGG
101559473 TGATATAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (26 bp):
GTAAGAAATACATACTATCCATTGGC
Found at i:101559588 original size:36 final size:36
Alignment explanation
Indices: 101559502--101559593 Score: 103
Period size: 36 Copynumber: 2.6 Consensus size: 36
101559492 TGCAAAAACA
** *
101559502 TTCATTGATGATATAAAATGCAAGAGGTGTAGATCG
1 TTCATTGATGATATAAAATGCAAGAAATGTAAATCG
* ** * *
101559538 TCCATTGACAATATAAAATGGAAGAAATGTAAATTG
1 TTCATTGATGATATAAAATGCAAGAAATGTAAATCG
*
101559574 TTCATTGGTGATATAAAATG
1 TTCATTGATGATATAAAATG
101559594 TAAGTCATGA
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.32
Consensus pattern (36 bp):
TTCATTGATGATATAAAATGCAAGAAATGTAAATCG
Found at i:101559972 original size:29 final size:29
Alignment explanation
Indices: 101559926--101560016 Score: 112
Period size: 29 Copynumber: 3.1 Consensus size: 29
101559916 AATACAAGGA
*
101559926 TGACGAGTGTGACGACCC-AGCCAGGTTGT
1 TGACGAGTGTGGCGACCCGA-CCAGGTTGT
* * *
101559955 TGATGAGTGTGGCAACCCGACCAAGTTGT
1 TGACGAGTGTGGCGACCCGACCAGGTTGT
* *
101559984 TTACGAGTATGGCGACCCGACCAGGTTGT
1 TGACGAGTGTGGCGACCCGACCAGGTTGT
101560013 TGAC
1 TGAC
101560017 AGATATAATG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 50 0.98
30 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.32, T:0.23
Consensus pattern (29 bp):
TGACGAGTGTGGCGACCCGACCAGGTTGT
Found at i:101561801 original size:62 final size:63
Alignment explanation
Indices: 101561715--101561842 Score: 197
Period size: 62 Copynumber: 2.0 Consensus size: 63
101561705 CAACGTGATT
*
101561715 TATAACTTAAATTTGGTAATTCAAACTCCATTAAAATGCACCTCATT-CTCGATGTGATAAGAA
1 TATAACTTAAATTTGGTAATTCAAACTCCATTAAAATGCACCTCATTCCT-AATGTGATAAGAA
* * *
101561778 TATAACTTAAA-TTGGTAATTCAAACTCTATTAAGATGCGCCTCATTCCTAATGTGATAAGAA
1 TATAACTTAAATTTGGTAATTCAAACTCCATTAAAATGCACCTCATTCCTAATGTGATAAGAA
101561840 TAT
1 TAT
101561843 CTCCGTGTGA
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
62 47 0.78
63 13 0.22
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (63 bp):
TATAACTTAAATTTGGTAATTCAAACTCCATTAAAATGCACCTCATTCCTAATGTGATAAGAA
Found at i:101562997 original size:16 final size:16
Alignment explanation
Indices: 101562976--101563015 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
101562966 TGAATTACTA
101562976 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
101562992 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
101563008 ATTACAGC
1 ATTACAGC
101563016 GAACTAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:101567198 original size:7 final size:7
Alignment explanation
Indices: 101567186--101567231 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
101567176 ACTTCTCAAA
101567186 TCATCTC
1 TCATCTC
101567193 TCATCTC
1 TCATCTC
*
101567200 TCATCCC
1 TCATCTC
* *
101567207 TCAACAC
1 TCATCTC
101567214 TCATCTC
1 TCATCTC
*
101567221 TCATCTT
1 TCATCTC
101567228 TCAT
1 TCAT
101567232 TCATCATTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (7 bp):
TCATCTC
Found at i:101570317 original size:20 final size:19
Alignment explanation
Indices: 101570257--101570329 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
101570247 TACATAATAA
*
101570257 ATAATTAATAATAAAATGAT
1 ATAA-TAATAATAAAAAGAT
* *
101570277 ATAGTAA-AATAAAAATAAT
1 ATAATAATAATAAAAA-GAT
101570296 ATAATGAATAATAAAAAGAT
1 ATAAT-AATAATAAAAAGAT
101570316 ATAATATATAATAA
1 ATAATA-ATAATAA
101570330 TTTTTACACA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 7 0.16
19 10 0.23
20 19 0.43
21 8 0.18
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAATAATAATAAAAAGAT
Found at i:101571941 original size:45 final size:43
Alignment explanation
Indices: 101571886--101572467 Score: 184
Period size: 45 Copynumber: 13.0 Consensus size: 43
101571876 CCATGCTGAA
* *
101571886 ATCTTTGATCTGCTCCCCACCTAATACAGAGACGCCAAATCTATC
1 ATCTTCGATCTGCT-CCCATCTAATACAGAGACGCCAAATCT-TC
* * * * * * * * * *
101571931 ATCTTCGATCTGCTTCGATGTAAACACACAAATGTCAGATCTGC
1 ATCTTCGATCTGCTCCCATCT-AATACAGAGACGCCAAATCTTC
* *
101571975 TATCCTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC
1 -ATCTTCGATCTGCT-CCCATCTAATACAGAGACGCCAAATCT-TC
* * * * * * * * * *
101572021 ATCTTTGATCTACTTCGATGTAA-ACACACGAATGTCAGATCTGC
1 ATCTTCGATCTGCTCCCATCTAATACAGA-G-ACGCCAAATCTTC
* *
101572065 TATTTTCGATCTGCTGCCCATCTATTACAGAGACGCCAAATCTGTC
1 -ATCTTCGATCTGCT-CCCATCTAATACAGAGACGCCAAATCT-TC
* * * * * * * *
101572111 ATCTTCGATCTGCTTCGATGTAA-ACATACGAATGTCAGATCTGC
1 ATCTTCGATCTGCTCCCATCTAATACAGA-G-ACGCCAAATCTTC
* * * * *
101572155 TATCTTCGATCTGCTCCCTGTCTAATACAAAGACTCTAAATCTGTT
1 -ATCTTCGATCTGCTCCC-ATCTAATACAGAGACGCCAAATCT-TC
* * * * * * * * **
101572201 ATCTTCAATCTGCTTCGATGTAA-ACACACGAATGTCAGATCGAC
1 ATCTTCGATCTGCTCCCATCTAATACAGA-G-ACGCCAAATCTTC
* * *
101572245 TATTTTCGATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTC
1 -ATCTTCGATCTGCT-CCCATCTAATACAGAGACGCCAAATCT-TC
* * * * * * * ** *
101572291 ATCTTCGATTTGCTTCGATGTAA-ACACACGAATGTCTGATCTAC
1 ATCTTCGATCTGCTCCCATCTAATACAGA-G-ACGCCAAATCTTC
* * *
101572335 TATCTTTGATTTGCTCTCCGTCTAATACAGAGACGCCAAATCTGTC
1 -ATCTTCGATCTGCTC-CCATCTAATACAGAGACGCCAAATCT-TC
* * * * * * * *
101572381 ATCTTCGATCTGCTTCGATGTAA-ACACACGAATGTCAGATCTGC
1 ATCTTCGATCTGCTCCCATCTAATACAGA-G-ACGCCAAATCTTC
* *
101572425 TATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCT
1 -ATCTTCGATCTGCT-CCCATCTAATACAGAGACGCCAAATCT
101572468 ACTATCAGTG
Statistics
Matches: 363, Mismatches: 141, Indels: 66
0.64 0.25 0.12
Matches are distributed among these distances:
43 20 0.06
44 37 0.10
45 250 0.69
46 36 0.10
47 20 0.06
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (43 bp):
ATCTTCGATCTGCTCCCATCTAATACAGAGACGCCAAATCTTC
Found at i:101572481 original size:90 final size:90
Alignment explanation
Indices: 101571886--101572467 Score: 896
Period size: 90 Copynumber: 6.5 Consensus size: 90
101571876 CCATGCTGAA
* ** *
101571886 ATCTTTGATCTGCTCCCCACCTAATACAGAGACGCCAAATCTATCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
*
101571951 TAAACACACAAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* * *
101571976 ATCCTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTTGATCTACTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
101572041 TAAACACACGAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* * * *
101572066 ATTTTCGATCTGCTGCCCATCTATTACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
*
101572131 TAAACATACGAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* * * * * *
101572156 ATCTTCGATCTGCTCCCTGTCTAATACAAAGACTCTAAATCTGTTATCTTCAATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
101572221 TAAACACACGAATGTCAGATC-GACT
66 TAAACACACGAATGTCAGATCTG-CT
* * *
101572246 ATTTTCGATCTACTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATTTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
* *
101572311 TAAACACACGAATGTCTGATCTACT
66 TAAACACACGAATGTCAGATCTGCT
* * *
101572336 ATCTTTGATTTGCTCTCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
101572401 TAAACACACGAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
*
101572426 ATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCT
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCT
101572468 ACTATCAGTG
Statistics
Matches: 440, Mismatches: 50, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
89 1 0.00
90 439 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (90 bp):
ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
TAAACACACGAATGTCAGATCTGCT
Found at i:101584572 original size:21 final size:20
Alignment explanation
Indices: 101584543--101584615 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
101584533 TACATAATAA
101584543 ATAATAAATAATAAAATGAT
1 ATAATAAATAATAAAATGAT
* *
101584563 ATAGT-AA-AATAAAAATAAT
1 ATAATAAATAAT-AAAATGAT
* *
101584582 ATAATGAATAATAAAAAGAT
1 ATAATAAATAATAAAATGAT
*
101584602 ATAATATATAATAA
1 ATAATAAATAATAA
101584616 TTTTTACACA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
18 3 0.07
19 13 0.30
20 24 0.56
21 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
ATAATAAATAATAAAATGAT
Found at i:101584578 original size:27 final size:27
Alignment explanation
Indices: 101584536--101584597 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
101584526 AAAATTATAC
101584536 ATAAT-AAATAATAAATAATAAAATGA
1 ATAATAAAATAATAAATAATAAAATGA
* *
101584562 TATAGTAAAATAA-AAATAATATAATGA
1 -ATAATAAAATAATAAATAATAAAATGA
101584589 ATAATAAAA
1 ATAATAAAA
101584598 AGATATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.26
27 17 0.55
28 6 0.19
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (27 bp):
ATAATAAAATAATAAATAATAAAATGA
Found at i:101588857 original size:15 final size:15
Alignment explanation
Indices: 101588837--101588871 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
101588827 AAAGAAGTTG
101588837 TTAAATCTGAGGTAA
1 TTAAATCTGAGGTAA
*
101588852 TTAAATCTGAGGTGA
1 TTAAATCTGAGGTAA
101588867 TTAAA
1 TTAAA
101588872 CTTCTAGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (15 bp):
TTAAATCTGAGGTAA
Found at i:101592213 original size:16 final size:17
Alignment explanation
Indices: 101592184--101592228 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
101592174 AAACCCCTAC
*
101592184 TATTCATCTTTTAT-TT
1 TATTTATCTTTTATCTT
101592200 ATATTTAT-TTTTATCTT
1 -TATTTATCTTTTATCTT
101592217 TATTTATCTTTT
1 TATTTATCTTTT
101592229 TAACTTACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTATCTTTTATCTT
Found at i:101603782 original size:68 final size:68
Alignment explanation
Indices: 101603710--101603867 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 68
101603700 CATCATGTGT
** * * *
101603710 ACAAGAGAGCTATGAGATACTATGTAGTAGCTAGGTCACATGTGTGATA-CGAGATGTA-TC-CC
1 ACAAGAGAGCTATGAGATA-TAAAT-GTAGCTAGGTCACATGTGTGATACCAAG-TGAAGACACC
101603772 ATGTAG
63 ATGTAG
* * * *
101603778 ACAAGAGAGCTACGGGAGAGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGGACACC
1 ACAAGAGAGCTA--TGAGATATAAATGTAGCTAGGTCACATGTGTGATACCAAGTGAA-GACACC
101603843 ATGTAG
63 ATGTAG
101603849 ACAAGAGAGCTATGAGATA
1 ACAAGAGAGCTATGAGATA
101603868 AAGTGAGGTT
Statistics
Matches: 73, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
68 36 0.49
69 11 0.15
70 6 0.08
71 20 0.27
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTATGAGATATAAATGTAGCTAGGTCACATGTGTGATACCAAGTGAAGACACCATG
TAG
Found at i:101622965 original size:31 final size:31
Alignment explanation
Indices: 101622927--101622990 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
101622917 ACTTCTAAGA
*
101622927 TGGATCAATCGGCTTTCCTTGAGTAATTTCT
1 TGGATCAATCGGCTTTCCTTGAGTAATTCCT
101622958 TGGATCAATCGGCTTTCCTTGAGTAATTCCT
1 TGGATCAATCGGCTTTCCTTGAGTAATTCCT
101622989 TG
1 TG
101622991 CTTCCTACCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (31 bp):
TGGATCAATCGGCTTTCCTTGAGTAATTCCT
Found at i:101628992 original size:22 final size:23
Alignment explanation
Indices: 101628970--101629021 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
101628960 ATGTTTTTAC
101628970 TTTTATTTTACTTTAAGACTACT
1 TTTTATTTTACTTTAAGACTACT
*
101628993 TTTTATTTTTCTTTAAG-CTTA-T
1 TTTTATTTTACTTTAAGAC-TACT
101629015 TTTTATT
1 TTTTATT
101629022 AGGTTTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.21, C:0.10, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTTATTTTACTTTAAGACTACT
Found at i:101631048 original size:13 final size:13
Alignment explanation
Indices: 101631027--101631066 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
101631017 TAAGCAATCG
*
101631027 CACATGGGCATGT
1 CACACGGGCATGT
101631040 CACACGGGCATGT
1 CACACGGGCATGT
*
101631053 CACACGGGCGTGT
1 CACACGGGCATGT
101631066 C
1 C
101631067 CCTGCCGAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (13 bp):
CACACGGGCATGT
Found at i:101636655 original size:19 final size:20
Alignment explanation
Indices: 101636614--101636655 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
101636604 GTAAATAAAT
**
101636614 AAAATAAATAATAATAATGA
1 AAAATAAATAATAATAAAAA
*
101636634 AAAATAAA-AGTAATAAAAA
1 AAAATAAATAATAATAAAAA
101636653 AAA
1 AAA
101636656 GTTAACATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (20 bp):
AAAATAAATAATAATAAAAA
Found at i:101636699 original size:26 final size:26
Alignment explanation
Indices: 101636643--101636699 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
101636633 AAAAATAAAA
*
101636643 GTAATAAAAAAAAGTTAACATACTAT
1 GTAATAAAAAAAAGTTAACACACTAT
* * *
101636669 CTAATAAAAAAAATTTAACACATTAT
1 GTAATAAAAAAAAGTTAACACACTAT
101636695 GTAAT
1 GTAAT
101636700 TCATTAGTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (26 bp):
GTAATAAAAAAAAGTTAACACACTAT
Found at i:101644882 original size:40 final size:39
Alignment explanation
Indices: 101644714--101644884 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
101644704 AGAAATTGAA
* *
101644714 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
101644754 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
101644794 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
101644834 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
101644874 TGATATCCGGG
1 TGATATCCGGG
101644885 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:101646507 original size:210 final size:210
Alignment explanation
Indices: 101646145--101646563 Score: 829
Period size: 210 Copynumber: 2.0 Consensus size: 210
101646135 TGGATGGATA
101646145 TATGAGTCTAAATTCAGGGAAAATTTACGAAACCAGTTTCCGAGTTTTGAAACTCGAGATATGAT
1 TATGAGTCTAAATTCAGGGAAAATTTACGAAACCAGTTTCCGAGTTTTGAAACTCGAGATATGAT
101646210 TTTTAAGACGACGGTGATGCAGTCTTCCAGCCTGACTGGAAATGTCAAATTGGTGGGCAAACCAT
66 TTTTAAGACGACGGTGATGCAGTCTTCCAGCCTGACTGGAAATGTCAAATTGGTGGGCAAACCAT
101646275 GTGAACTTGGCTTGTTAACCCCTCGTGTCCGACACCGGCAATGGTCTCGGGTTCGGGGTGTTACA
131 GTGAACTTGGCTTGTTAACCCCTCGTGTCCGACACCGGCAATGGTCTCGGGTTCGGGGTGTTACA
101646340 ATTTTATGGTATCAC
196 ATTTTATGGTATCAC
101646355 TATGAGTCTAAATTCAGGGAAAATTTACGAAACCAGTTTCCGAGTTTTGAAACTCGAGATATGAT
1 TATGAGTCTAAATTCAGGGAAAATTTACGAAACCAGTTTCCGAGTTTTGAAACTCGAGATATGAT
*
101646420 TTTTAAGGCGACGGTGATGCAGTCTTCCAGCCTGACTGGAAATGTCAAATTGGTGGGCAAACCAT
66 TTTTAAGACGACGGTGATGCAGTCTTCCAGCCTGACTGGAAATGTCAAATTGGTGGGCAAACCAT
101646485 GTGAACTTGGCTTGTTAACCCCTCGTGTCCGACACCGGCAATGGTCTCGGGTTCGGGGTGTTACA
131 GTGAACTTGGCTTGTTAACCCCTCGTGTCCGACACCGGCAATGGTCTCGGGTTCGGGGTGTTACA
101646550 ATTTTATGGTATCA
196 ATTTTATGGTATCA
101646564 GAGCCACGGT
Statistics
Matches: 208, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
210 208 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (210 bp):
TATGAGTCTAAATTCAGGGAAAATTTACGAAACCAGTTTCCGAGTTTTGAAACTCGAGATATGAT
TTTTAAGACGACGGTGATGCAGTCTTCCAGCCTGACTGGAAATGTCAAATTGGTGGGCAAACCAT
GTGAACTTGGCTTGTTAACCCCTCGTGTCCGACACCGGCAATGGTCTCGGGTTCGGGGTGTTACA
ATTTTATGGTATCAC
Found at i:101653122 original size:40 final size:39
Alignment explanation
Indices: 101652954--101653124 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
101652944 AGAAATTGAA
* *
101652954 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
101652994 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
101653034 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
101653074 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
101653114 TGATATCCGGG
1 TGATATCCGGG
101653125 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:101658266 original size:17 final size:17
Alignment explanation
Indices: 101658244--101658278 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
101658234 TTCAAGATTG
*
101658244 AATACATAAAATTTGAA
1 AATACATAAAATATGAA
*
101658261 AATACATATAATATGAA
1 AATACATAAAATATGAA
101658278 A
1 A
101658279 GGAGTAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (17 bp):
AATACATAAAATATGAA
Found at i:101662626 original size:42 final size:42
Alignment explanation
Indices: 101662574--101662660 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
101662564 CTCGATATAT
*
101662574 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATA
*
101662616 TATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTACTA
1 TATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATA
101662658 TAT
1 TAT
101662661 CTGGGCTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (42 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAATA
Found at i:101665305 original size:40 final size:40
Alignment explanation
Indices: 101665250--101665453 Score: 257
Period size: 40 Copynumber: 5.1 Consensus size: 40
101665240 TGAATGATAC
* * * *
101665250 CCGGGCTAAGTCCCGAAGGCAATTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
101665290 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTAATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
101665330 CCGGGCTAAGACCCGAAGGCATTTGTTCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
101665370 CCGGGCTAAGACCCGAAGGTATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * ** *
101665410 CCAGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
101665450 CCGG
1 CCGG
101665454 TTAAATTCCG
Statistics
Matches: 142, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
40 140 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:101665383 original size:80 final size:80
Alignment explanation
Indices: 101665246--101665453 Score: 285
Period size: 80 Copynumber: 2.6 Consensus size: 80
101665236 CATTTGAATG
* *
101665246 ATACCCGGGCTAAGTCCCGAAGGCAATTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGC
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
101665310 ATTTGTGCGAGTTG-T
65 ATTTGTGCGAGTTGCT
* * * * *
101665325 AATATCCGGGCTAAGACCCGAAGGCATTTGTTCGAGTTGTTATATCCGGGCTAAGACCCGAAGGT
1 -ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGC
101665390 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* * * *
101665406 ATACCCAGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGG
1 ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGTTATATCCGG
101665454 TTAAATTCCG
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
80 108 0.97
81 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:101668866 original size:22 final size:22
Alignment explanation
Indices: 101668838--101668881 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
101668828 TTTGAGAGAG
101668838 AAAGGGAAGAAACAATTCTATT
1 AAAGGGAAGAAACAATTCTATT
101668860 AAAGGGAAGAAACAATTCTATT
1 AAAGGGAAGAAACAATTCTATT
101668882 TCTGTATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.18, T:0.23
Consensus pattern (22 bp):
AAAGGGAAGAAACAATTCTATT
Found at i:101674384 original size:27 final size:27
Alignment explanation
Indices: 101674354--101674408 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
101674344 AGGCTATATT
101674354 TGAAATGATAGATCAAGGAAATCAAGA
1 TGAAATGATAGATCAAGGAAATCAAGA
*
101674381 TGAAATTATAGATCAAGGAAATCAAGA
1 TGAAATGATAGATCAAGGAAATCAAGA
101674408 T
1 T
101674409 TTGGGCTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.51, C:0.07, G:0.20, T:0.22
Consensus pattern (27 bp):
TGAAATGATAGATCAAGGAAATCAAGA
Found at i:101684061 original size:40 final size:40
Alignment explanation
Indices: 101683997--101684187 Score: 208
Period size: 39 Copynumber: 4.8 Consensus size: 40
101683987 GCTACTCGTT
* * * ***
101683997 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
101684037 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *** *
101684077 CAATTGCCTTCGGG-CTTAGCCCGGATATCATGGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * *
101684116 CCATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
*
101684155 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
101684188 TTCGCACATT
Statistics
Matches: 133, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.66
40 45 0.34
ACGTcount: A:0.24, C:0.32, G:0.22, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Done.